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Train the Trainer for Image Analysts

30 - 31 May 2019

Cambridge, United Kingdom

Train the Trainer for Image Analystshttp://training.csx.cam.ac.uk/bioinformatics/event/2956475https://tess.elixir-europe.org/events/train-the-trainer-ace57510-4abc-42c3-942a-fe1b145ea9ad
This course aims to provide trainers with guidance and tips for developing and delivering training in image analysis, exploring a range of methods appropriate to different learning styles and examining the requirements for a successful course (both scientific and logistic).
The first part of the course will give participants principles of training theory and best practises for developing and delivering their future training content; the second part will be a hackathon to kick start the development of a common set of training materials in image analysis.
This event is organized in collaboration with the [Image Analysis Focused Interest Group](http://iafig-rms.org/) and is supported by the [Royal Microscopical Society](https://www.rms.org.uk/).
The training room is located on the first floor and there is currently no wheelchair or level access available to this level.
Please note that if you are not eligible for a University of Cambridge [Raven](http://www.ucs.cam.ac.uk/docs/faq/raven/n5) account you will need to Book or register Interest by linking [here](http://bioinfotraining.bio.cam.ac.uk/booking-form/?event-id=2956475&amp;course-title=Train%20the%20trainer%20for%20Image%20Analysts).''2019-05-30 08:30:00 UTC2019-05-31 17:00:00 UTCUniversity of CambridgeCraik-Marshall Building, Cambridge, United KingdomCraik-Marshall BuildingCambridgeUnited KingdomCB2 3ARUniversity of Cambridge Bioinformatics Training[]Members of the Group.Image data analysts who are already involved in delivering training or planning to do so in the near futureworkshops_and_courses[][]

COSMIC: Integrating and interpreting the world’s knowledge of somatic mutations in cancer

4 June 2019

Cambridge, United Kingdom

COSMIC: Integrating and interpreting the world’s knowledge of somatic mutations in cancerhttp://training.csx.cam.ac.uk/bioinformatics/event/2887770https://tess.elixir-europe.org/events/cosmic-integrating-and-interpreting-the-world-s-knowledge-of-somatic-mutations-in-cancer
[COSMIC](http://cancer.sanger.ac.uk), the Catalogue of Somatic Mutations in Cancer, is the world’s largest and most comprehensive expert manually curated resource for exploring the impact of somatic mutations in human cancer. Based at the Wellcome Sanger Institute and available publicly at https://cancer.sanger.ac.uk/cosmic, the latest release includes almost 6 million coding mutations across 1.4 million samples from over 26,000 papers. COSMIC captures the full spectrum of genomic data relating to somatic mutations, so in addition to coding mutations, gene fusions, non-coding mutations, copy-number variants, methylation and drug resistance mutations are included.
This course will use the live COSMIC website and tools to show you how to access and explore this information, seeking to identify genetic causes and targets in all human cancers.
The training room is located on the first floor and there is currently no wheelchair or level access available to this level.
Please note that if you are not eligible for a University of Cambridge [Raven](http://www.ucs.cam.ac.uk/docs/faq/raven/n5) account you will need to book by linking [here](http://bioinfotraining.bio.cam.ac.uk/booking-form/?event-id=2887770&amp;course-title=COSMIC).''2019-06-04 08:30:00 UTC2019-06-04 11:00:00 UTCUniversity of CambridgeCraik-Marshall Building, Cambridge, United KingdomCraik-Marshall BuildingCambridgeUnited KingdomCB2 3ARUniversity of Cambridge Bioinformatics Training[]This course is aimed at scientistsclinicians and informaticians interested in cancer geneticsencompassing all aspects of academic researchdata integration and visualisationand industrial investigations into diagnostic and pharmaceutical design across all human cancers.Graduate studentsPostdocs and Staff members from the University of CambridgeInstitutions and other external Institutions or individualsworkshops_and_courses[][]

Bioinformatics for Core Facility Managers

4 - 6 June 2019

Cambridge, United Kingdom

Bioinformatics for Core Facility Managershttp://www.ebi.ac.uk/training/events/2019/bioinformatics-core-facility-managers-1https://tess.elixir-europe.org/events/bioinformatics-for-core-facility-managers-70126bc7-2231-4025-9b3d-d29127a3caeaBioinformatics core facilities play an essential role in enabling research in the molecular life sciences. This is constantly evolving as new research tools emerge, as experiments become increasingly data intensive, and as their clients – experimental researchers – become more exposed to the power of data-driven biology. This is an opportunity for managers of core facilities to learn directly from EMBL-EBI’s service teams, from each other and from potential users.
This course is organised in parallel with Bioinformatics for Principal Investigators to maximise opportunities for networking.2019-06-04 09:00:00 UTC2019-06-06 17:00:00 UTCEuropean Bioinformatics Institute (EMBL-EBI) - Training Room 2, Cambridge, United KingdomEuropean Bioinformatics Institute (EMBL-EBI) - Training Room 2CambridgeUnited KingdomCB10 1SD[]EMBL-EBI Training Team[][][][][]

Bioinformatics for Principal Investigators

4 - 6 June 2019

Cambridge, United Kingdom

Bioinformatics for Principal Investigatorshttp://www.ebi.ac.uk/training/events/2019/bioinformatics-principal-investigators-3https://tess.elixir-europe.org/events/bioinformatics-for-principal-investigators-05d46475-a4a3-444c-9ef0-c72ca5b0bd90The aim of this course is to provide principal investigators with an introduction to the challenges of working with biological data as a research leader. This course will not provide a platform for teaching hands-on bioinformatics analysis.2019-06-04 09:00:00 UTC2019-06-06 17:00:00 UTCEuropean Bioinformatics Institute (EMBL-EBI) - Training Room 1, Cambridge, United KingdomEuropean Bioinformatics Institute (EMBL-EBI) - Training Room 1CambridgeUnited KingdomCB10 1SD[]Charlotte Pearton[][][][][]

Managing a Bioinformatics Core Facility

4 - 6 June 2019

Cambridge, United Kingdom

Managing a Bioinformatics Core Facilityhttp://www.ebi.ac.uk/training/events/2019/managing-bioinformatics-core-facilityhttps://tess.elixir-europe.org/events/managing-a-bioinformatics-core-facilityBioinformatics core facilities play an essential role in enabling research in the molecular life sciences. This is constantly evolving as new research tools emerge, as experiments become increasingly data intensive, and as their clients – experimental researchers – become more exposed to the power of data-driven biology.2019-06-04 09:00:00 UTC2019-06-06 17:00:00 UTCEuropean Bioinformatics Institute (EMBL-EBI) - Training Room 2, Cambridge, United KingdomEuropean Bioinformatics Institute (EMBL-EBI) - Training Room 2CambridgeUnited KingdomCB10 1SD[]Charlotte Pearton[][][][][]

Data Manipulation and Visualisation in R

10 June 2019

Cambridge, United Kingdom

Data Manipulation and Visualisation in Rhttp://training.csx.cam.ac.uk/bioinformatics/event/2941927https://tess.elixir-europe.org/events/data-manipulation-and-visualisation-in-r-d16d9fc4-56fa-44e9-9751-38f96766115aThis course introduces some relatively new additions to the R programming language: dplyr and ggplot2. In combination these R packages provide a powerful toolkit to make the process of manipulating and visualising data easy and intuitive.
Materials for this course can be found [here](http://bioinformatics-core-shared-training.github.io/r-intermediate/).
The training room is located on the first floor and there is currently no wheelchair or level access available to this level.
Please note that if you are not eligible for a University of Cambridge [Raven](http://www.ucs.cam.ac.uk/docs/faq/raven/n5) account you will need to book by linking [here](http://bioinfotraining.bio.cam.ac.uk/booking-form/?event-id=2941927&amp;course-title=Data%20manipulation%20and%20visualisation).''2019-06-10 08:30:00 UTC2019-06-10 16:30:00 UTCUniversity of CambridgeCraik-Marshall Building, Cambridge, United KingdomCraik-Marshall BuildingCambridgeUnited KingdomCB2 3ARData visualisationBiologyBioinformaticsUniversity of Cambridge Bioinformatics Training[]Existing R users who are not familiar with dplyr and ggplot2Those with programming experience in other languages that want to know what R can offer themGraduate studentsPostdocs and Staff members from the University of CambridgeInstitutions and other external Institutions or individualsworkshops_and_courses[][]

An Introduction to Solving Biological Problems with R

11 - 12 June 2019

Cambridge, United Kingdom

An Introduction to Solving Biological Problems with Rhttp://training.csx.cam.ac.uk/bioinformatics/event/2823243https://tess.elixir-europe.org/events/an-introduction-to-solving-biological-problems-with-r-dfab4f42-37de-43ac-963d-c5aee27aa902﻿[R](https://www.r-project.org/) is a highly-regarded, free, software environment for statistical analysis, with many useful features that promote and facilitate reproducible research.
In this course, we give an introduction to the R environment and explain how it can be used to import, manipulate and analyse tabular data. After the course you should feel confident to start exploring your own dataset using the materials and references provided.
The course website providing links to the course materials is [here](http://cambiotraining.github.io/r-intro/).
Please note that although we will demonstrate how to perform statistical analysis in R, we will not cover the theory of statistical analysis in this course. Those seeking an in-depth explanation of how to perform and interpret statistical tests are advised to see the list of Related courses. Moreover, those with some programming experience in other languages (e.g. Python, Perl) might wish to attend the follow-on [Data Analysis and Visualisation in R](http://training.csx.cam.ac.uk/bioinformatics/course/bioinfo-intR) course.
This event is supported by the BBSRC Strategic Training Awards for Research Skills (STARS) grant (BB/P022766/1).
The training room is located on the first floor and there is currently no wheelchair or level access available to this level.
Please note that if you are not eligible for a University of Cambridge [Raven](http://www.ucs.cam.ac.uk/docs/faq/raven/n5) account you will need to book or register your interest by linking [here](http://bioinfotraining.bio.cam.ac.uk/booking-form/?event-id=2823243&amp;course-title=An%20Introduction%20to%20Solving%20Biological%20Problems%20with%20R).''2019-06-11 08:30:00 UTC2019-06-12 16:30:00 UTCUniversity of CambridgeCraik-Marshall Building, Cambridge, United KingdomCraik-Marshall BuildingCambridgeUnited KingdomCB2 3ARBiologyBioinformaticsUniversity of Cambridge Bioinformatics Training[]Graduate studentsPostdocs and Staff members from the University of CambridgeInstitutions and other external Institutions or individualsworkshops_and_courses[][]

Data Science in Python

13 - 14 June 2019

Cambridge, United Kingdom

Data Science in Pythonhttp://training.csx.cam.ac.uk/bioinformatics/event/2823193https://tess.elixir-europe.org/events/data-science-in-python-990bc31d-3442-44e6-92ec-aa33febf392cThis course covers concepts and strategies for working more effectively with Python with the aim of writing reusable code, using function and libraries. Participants will acquire a working knowledge of key concepts which are prerequisites for advanced programming in Python e.g. writing modules and classes.
Note: this course is the continuation of the [Introduction to Solving Biological Problems with Python](http://training.csx.cam.ac.uk/bioinformatics/course/bioinfo-python/); participants are expected to have attended the introductory Python course and/or have acquired some working knowledge of Python. This course is also open to Python beginners who are already fluent in other programming languages as this will help them to quickly get started in Python.
The training room is located on the first floor and there is currently no wheelchair or level access available to this level.
Please note that if you are not eligible for a University of Cambridge [Raven](http://www.ucs.cam.ac.uk/docs/faq/raven/n5) account you will need to book by linking [here](http://bioinfotraining.bio.cam.ac.uk/booking-form/?event-id=2823193&amp;course-title=Data%20Science%20in%20Python).''2019-06-13 08:30:00 UTC2019-06-14 15:30:00 UTCUniversity of CambridgeCraik-Marshall Building, Cambridge, United KingdomCraik-Marshall BuildingCambridgeUnited KingdomCB2 3ARBiologyBioinformaticsUniversity of Cambridge Bioinformatics Training[]Graduate studentsPostdocs and Staff members from the University of CambridgeInstitutions and other external Institutions or individualsworkshops_and_courses[][]

An Introduction to MATLAB for biologists

17 - 18 June 2019

Cambridge, United Kingdom

An Introduction to MATLAB for biologistshttp://training.csx.cam.ac.uk/bioinformatics/event/2848057https://tess.elixir-europe.org/events/an-introduction-to-matlab-for-biologists-a9541e05-1954-46a3-9643-ac3655b1ee37This course aims to give you an introduction to the basics of Matlab. During the two day course we will use a practical based approach to give you the confidence to start using Matlab in your own work. In particular we will show you how to write your own scripts and functions and how to use pre-written functions. We will also explore the many ways in which help is available to Matlab users. In addition we will cover basic computer programming in Matlab to enable you to write more efficient scripts.
The training room is located on the first floor and there is currently no wheelchair or level access available to this level.
Please note that if you are not eligible for a University of Cambridge [Raven](http://www.ucs.cam.ac.uk/docs/faq/raven/n5) account you will need to Book or register Interest by linking [here](http://bioinfotraining.bio.cam.ac.uk/booking-form/?event-id=2848057&amp;course-title=An%20Introduction%20to%20MATLAB).''2019-06-17 08:30:00 UTC2019-06-18 16:30:00 UTCUniversity of CambridgeCraik-Marshall Building, Cambridge, United KingdomCraik-Marshall BuildingCambridgeUnited KingdomCB2 3ARBiologyBioinformaticsUniversity of Cambridge Bioinformatics Training[]Graduate studentsPostdocs and Staff members from the University of CambridgeInstitutions and other external Institutions or individualsworkshops_and_courses[][]

Cancer Genomics

17 - 20 June 2019

Cambridge, United Kingdom

Cancer Genomicshttp://www.ebi.ac.uk/training/events/2019/cancer-genomics-4https://tess.elixir-europe.org/events/cancer-genomics-25813526-6bae-478b-85ff-8256ec6b15cbThis course will focus on the analysis of data from genomic studies of Cancer. Lectures will give an insight into the bioinformatic concepts required to analyze such data, whilst practical sessions will enable the participants to apply statistical methods to the analysis of cancer genomics data under the guidance of the lecturers and teaching assistants.2019-06-17 09:00:00 UTC2019-06-20 17:00:00 UTCEuropean Bioinformatics Institute (EMBL-EBI) - Training Room 1, Cambridge, United KingdomEuropean Bioinformatics Institute (EMBL-EBI) - Training Room 1CambridgeUnited KingdomCB10 1SD[]Marina Pujol[][][][][]

Biological data analysis using InterMine (User Interface)

19 June 2019

Cambridge, United Kingdom

Biological data analysis using InterMine (User Interface)http://training.csx.cam.ac.uk/bioinformatics/event/2874533https://tess.elixir-europe.org/events/biological-data-analysis-using-intermine-98ca2f5d-2b72-48e4-bd7b-463d61ab6d2b[InterMine](http://intermine.org/) is a freely available data integration and analysis system that has been used to create a suite of databases for the analysis of large and complex biological data sets.
InterMine-based data analysis platforms are available for many organisms including mouse, rat, budding yeast, plants, nematodes, fly, zebrafish and more recently human. See [here](http://intermine.org/) for a comprehensive list of InterMine databases.
The InterMine web interface offers sophisticated query and visualisation tools, as well as comprehensive web services for bioinformaticians. Genomic and proteomic data within InterMine databases includes pathways, gene expression, interactions, sequence variants, GWAS, regulatory data and protein expression.
This course will focus on the InterMine web interface and will introduce participants to all aspects of the user interface, starting with some simple exercises and building up to more complex analysis encompassing several analysis tools and comparative analysis across organisms. The exercises will mainly use the fly, human and mouse databases, but the course is applicable to anyone working with data for which an InterMine database is available.
This event is organised alongside a half day course on Biological data analysis using the InterMine API. More information on this event are available [here](https://training.csx.cam.ac.uk/bioinformatics/course/bioinfo-intermineAPI).
The training room is located on the first floor and there is currently no wheelchair or level access available to this level.
Please note that if you are not eligible for a University of Cambridge [Raven](http://www.ucs.cam.ac.uk/docs/faq/raven/n5) account you will need to Book or register Interest by linking [here](http://bioinfotraining.bio.cam.ac.uk/booking-form/?event-id=2874533&amp;course-title=Biological%20data%20analysis%20using%20InterMine).''2019-06-19 08:30:00 UTC2019-06-19 11:30:00 UTCUniversity of CambridgeCraik-Marshall Building, Cambridge, United KingdomCraik-Marshall BuildingCambridgeUnited KingdomCB2 3ARUniversity of Cambridge Bioinformatics Training[]The course is aimed at <b>bench biologists and bioinformaticians</b> who need to analyse their own data against large biological datasetsor who need to search against several biological datasets to gain knowledge of a gene/gene setbiological process or function.Graduate studentsPostdocs and Staff members from the University of CambridgeInstitutions and other external Institutions or individualsworkshops_and_courses[][]

Biological data analysis using the InterMine API

19 June 2019

Cambridge, United Kingdom

Biological data analysis using the InterMine APIhttp://training.csx.cam.ac.uk/bioinformatics/event/2876900https://tess.elixir-europe.org/events/biological-data-analysis-using-the-intermine-api[InterMine](http://intermine.org/) is a freely available data integration and analysis system that has been used to create a suite of databases for the analysis of large and complex biological data sets.
InterMine-based data analysis platforms are available for many organisms including mouse, rat, budding yeast, plants, nematodes, fly, zebrafish and more recently human. See [here](http://registry.intermine.org/) for a comprehensive list of InterMine databases.
Genomic and proteomic data within InterMine databases includes pathways, gene expression, interactions, sequence variants, GWAS, regulatory data and protein expression.
InterMine provides sophisticated query and visualisation tools both through a web interface and an extensive API; this course will focus on programmatic access to InterMine through its API and on running InterMine searches using Python, Perl and R scripts. The exercises will mainly use the fly, human and mouse databases, but the course is applicable to anyone working with data for which an InterMine database is available.
This event is organised alongside a half day course on Biological data analysis using the InterMine User Interface. More information on this event are available [ https://training.csx.cam.ac.uk/bioinformatics/course/bioinfo-intermine here].
The training room is located on the first floor and there is currently no wheelchair or level access available to this level.
Please note that if you are not eligible for a University of Cambridge [Raven](http://www.ucs.cam.ac.uk/docs/faq/raven/n5) account you will need to Book or register Interest by linking [here](http://bioinfotraining.bio.cam.ac.uk/booking-form/?event-id=2876900&amp;course-title=Biological%20data%20analysis%20using%20the%20InterMine%20API).''2019-06-19 12:30:00 UTC2019-06-19 15:30:00 UTCUniversity of CambridgeCraik-Marshall Building, Cambridge, United KingdomCraik-Marshall BuildingCambridgeUnited KingdomCB2 3ARUniversity of Cambridge Bioinformatics Training[]The course is suitable for anyone wanting to know how the InterMine API works and how accessing InterMine data programmatically could help them in their researchGraduate studentsPostdocs and Staff members from the University of CambridgeInstitutions and other external Institutions or individualsworkshops_and_courses[][]

Protein Structure Analysis

20 - 21 June 2019

Cambridge, United Kingdom

Protein Structure Analysishttp://training.csx.cam.ac.uk/bioinformatics/event/2884552https://tess.elixir-europe.org/events/protein-structure-analysis-68d1adc5-ee68-4cd3-a3a2-53474493f726This course covers analytical approaches for the interpretation of biomacromolecular structures including how to find information about the structure and function of your protein sequence using [CATH](http://www.cathdb.info/), principles of modern state-of-the-art protein modelling with [ Phyre2](http://www.sbg.bio.ic.ac.uk/phyre2/) and methods for predicting the effects of mutations on protein structure and function using the [SAAP family of tools](http://www.bioinf.org.uk/saap/). In addition, we will look at mapping genetic variants onto structures as well as visualisation and basic analysis of protein structures.
The training room is located on the first floor and there is currently no wheelchair or level access available to this level.
Please note that if you are not eligible for a University of Cambridge [Raven](http://www.ucs.cam.ac.uk/docs/faq/raven/n5) account you will need to book by linking [here](http://bioinfotraining.bio.cam.ac.uk/booking-form/?event-id=2884552&amp;course-title=Protein%20Structure%20Analysis).''2019-06-20 09:00:00 UTC2019-06-21 15:30:00 UTCUniversity of CambridgeCraik-Marshall Building, Cambridge, United KingdomCraik-Marshall BuildingCambridgeUnited KingdomCB2 3ARProtein structure analysisData visualisationBioinformaticsUniversity of Cambridge Bioinformatics Training[]Graduate studentsPostdocs and Staff members from the University of CambridgeInstitutions and other external Institutions or individualsworkshops_and_courses[][]

Image Analysis for Biologists

24 - 26 June 2019

Cambridge, United Kingdom

Image Analysis for Biologistshttp://training.csx.cam.ac.uk/bioinformatics/event/2871473https://tess.elixir-europe.org/events/image-analysis-for-biologists-5372065b-76aa-42d1-b91f-17ef321e2e8dThis course will focus on computational methods for analysing cellular images and extracting quantitative data from them. The aim of this course is to familiarise the participants with computational image analysis methodologies, and to provide hands-on training in running quantitative analysis pipelines.
On day 1 we will introduce principles of image processing and analysis, giving an overview of commonly used algorithms through a series of talks and practicals based on [Fiji](http://fiji.sc/), an extensible open source software package.
On day 2, we will describe the open [Icy platform](http://icy.bioimageanalysis.org/) developed at the Institut Pasteur. Icy is a next-generation, user-friendly software offering powerful acquisition, visualisation, annotation and analysis algorithms for 5D bioimaging data, together with unique automation/scripting capabilities (notably via its graphical programming interface) and tight integration with existing software (e.g. ImageJ, Matlab, Micro-Manager).
On day 3, we will cover time series processing and cell tracking using [TrackMate](http://imagej.net/TrackMate) and advanced image segmentation using [Ilastik](http://ilastik.org/). Additionally, in the afternoon we will run a study design and data clinic (sign up will be required) for participants that wish to discuss their experiments.
The training room is located on the first floor and there is currently no wheelchair or level access available to this level.
Please note that if you are not eligible for a University of Cambridge [Raven](http://www.ucs.cam.ac.uk/docs/faq/raven/n5) account you will need to book or register your interest by linking [here](http://bioinfotraining.bio.cam.ac.uk/booking-form/?event-id=2871473&amp;course-title=Image%20Analysis%20for%20Biologists).''2019-06-24 08:30:00 UTC2019-06-26 16:00:00 UTCUniversity of CambridgeCraik-Marshall Building, Cambridge, United KingdomCraik-Marshall BuildingCambridgeUnited KingdomCB2 3ARData visualisationData miningBiological imagingBioinformaticsUniversity of Cambridge Bioinformatics Training[]Researchers who are applying or planning to apply image analysis in their researchGraduate studentsPostdocs and Staff members from the University of CambridgeInstitutions and other external Institutions or individualsworkshops_and_courses[][]

Summer School in Bioinformatics

24 - 28 June 2019

Cambridge, United Kingdom

Summer School in Bioinformaticshttp://www.ebi.ac.uk/training/events/2019/summer-school-bioinformatics-2https://tess.elixir-europe.org/events/summer-school-in-bioinformatics-af1d40b8-f3c7-40de-aab0-059b647a0f15This course provides an introduction to the use of bioinformatics in biological research, giving participants guidance for using bioinformatics in their work whilst also providing hands-on training in tools and resources appropriate to their research.2019-06-24 09:00:00 UTC2019-06-28 17:00:00 UTCEuropean Bioinformatics Institute (EMBL-EBI) - Training Room 2, Cambridge, United KingdomEuropean Bioinformatics Institute (EMBL-EBI) - Training Room 2CambridgeUnited KingdomCB10 1SD[]EMBL-EBI Training Team[][][][][]

An introduction to metabolomics and its application in life-sciences

27 - 28 June 2019

Cambridge, United Kingdom

An introduction to metabolomics and its application in life-scienceshttp://training.csx.cam.ac.uk/bioinformatics/event/2871453https://tess.elixir-europe.org/events/an-introduction-to-metabolomics-and-its-application-in-life-sciences-479b264a-da05-42b8-ba0e-679e70e2823cThe goal of metabolomics is to identify and quantify the complete biochemical composition of a biological sample. With the increase in genomic, transcriptomic and proteomic information there is a growing need to understand the metabolic phenotype that these genes and proteins ultimately control.
The aim of this course is to provide an overview of metabolomics and its applications in life sciences, clinical and environmental settings. Over 2 days we will introduce different techniques used to extract metabolites and analyse samples to collect metabolomic data (such as HPLC or GC-based MS and NMR), present how to analyse such data, how to identify metabolites using online databases and how to map the metabolomic data to metabolic pathways.
The course content will predominantly be based on analysing samples from model plant species such as Arabidopsis thaliana but the procedures are transferable to all other organisms, including clinical and environmental settings.
The training room is located on the first floor and there is currently no wheelchair or level access available to this level.
Please note that if you are not eligible for a University of Cambridge [Raven](http://www.ucs.cam.ac.uk/docs/faq/raven/n5) account you will need to book by linking [here](http://bioinfotraining.bio.cam.ac.uk/booking-form/?event-id=2871453&amp;course-title=An%20introduction%20to%20metabolomics%20and%20its%20application%20in%20life-sciences).''2019-06-27 08:30:00 UTC2019-06-28 16:30:00 UTCUniversity of CambridgeCraik-Marshall Building, Cambridge, United KingdomCraik-Marshall BuildingCambridgeUnited KingdomCB2 3ARMetabolomicsData visualisationBioinformaticsUniversity of Cambridge Bioinformatics Training[]This course is aimed at researchers with an interest in metabolomics and its applicationsGraduate studentsPostdocs and Staff members from the University of CambridgeInstitutions and other external Institutions or individualsworkshops_and_courses[][]

Summer School - Bioinformatics for Biologists: An introduction to Data Exploration, Statistics and Reproducibility

1 - 5 July 2019

Cambridge, United Kingdom

Summer School - Bioinformatics for Biologists: An introduction to Data Exploration, Statistics and Reproducibilityhttp://training.csx.cam.ac.uk/bioinformatics/event/2853417https://tess.elixir-europe.org/events/summer-school-bioinformatics-for-biologists-an-introduction-to-data-exploration-statistics-and-reproducibilityThis 1-week course aims to provide an introduction to the best practices and tools needed to perform bioinformatics research effectively and reproducibly.
Focusing on solutions around handling biological data, we will cover introductory lessons in data manipulation and visualisation in R, statistical analyses, and reproducibility. The R component of the course will cover from basic steps in R to how to use some of the most popular R packages (dplyr and ggplot2) for data manipulation and visualisation. No prior R experience or previous knowledge of programming/coding is required. The course also includes introductory sessions in statistics and working examples on how to analyse biological data. At the end of the course we will address issues relating to reusability and reproducibility.
More information about the course can be found [here](https://e.issuu.com/anonymous-embed.html?u=bioinformaticscambridge&amp;d=bioinformaticsforbiologists_july201).
This course is run in collaboration with the [Institute of Continuing Education](https://www.ice.cam.ac.uk/).
The training room is located on the first floor and there is currently no wheelchair or level access available to this level.
Please note that if you are not eligible for a University of Cambridge [Raven](http://www.ucs.cam.ac.uk/docs/faq/raven/n5) account you will need to book or register your interest by linking [here](http://bioinfotraining.bio.cam.ac.uk/booking-form/?event-id=2853417&amp;course-title=Bioinformatics%20for%20Biologists).''2019-07-01 08:30:00 UTC2019-07-05 16:15:00 UTCUniversity of CambridgeCraik-Marshall Building, Cambridge, United KingdomCraik-Marshall BuildingCambridgeUnited KingdomCB2 3ARData visualisationBioinformaticsUniversity of Cambridge Bioinformatics Training[]This course is aimed at individuals working across biological and biomedical sciences who have little to no experience in bioinformatics.The course is open to Graduate studentsPostdocs and Staff members from the University of CambridgeInstitutions and other external Institutions or individuals<span style="color:#FF0000">Please note that all participants attending this course will be charged a registration fee.<span style="color:#0000FF"> Non-members of the University of Cambridge to pay £575 </span style><span style="color:#0000FF">All Members of the University of Cambridge to pay £250 </span style>
<span style="color:#FF0000">A booking will only be approved and confirmed once the fee has been paid in full.</span style>workshops_and_courses[][]

Integrative X-omics analyses empowering personalized healthcare

1 - 5 July 2019

Nijmegen, Netherlands

Integrative X-omics analyses empowering personalized healthcarehttps://www.dtls.nl/?post_type=course&p=16976https://tess.elixir-europe.org/events/integrative-x-omics-analyses-empowering-personalized-healthcareIn this course you will receive high profile lectures and practical training on the integrated use of molecular-omics technologies in personalized prevention, diagnostics and treatment, to optimize your experimental and analysis strategies. Molecular indicators for health, disease and response to…
The post Integrative X-omics analyses empowering personalized healthcare appeared first on Dutch Techcentre for Life Sciences.
2019-07-01 09:00:00 UTC2019-07-05 00:00:00 UTCNijmegen, Netherlands, Nijmegen, NetherlandsNijmegen, NetherlandsNijmegenNetherlands[][][]workshops_and_courses[][]

Variant Discovery with GATK4

8 - 11 July 2019

Cambridge, United Kingdom

Variant Discovery with GATK4http://training.csx.cam.ac.uk/bioinformatics/event/2858057https://tess.elixir-europe.org/events/variant-discovery-with-gatk4This workshop will focus on the core steps involved in calling germline short variants, somatic short variants, and copy number alterations with the [Broad’s Genome Analysis Toolkit (GATK)](https://www.broadinstitute.org/gatk/), using “Best Practices” developed by the GATK methods development team. A team of methods developers and instructors from the Data Sciences Platform at Broad will give talks explaining the rationale, theory, and real-world applications of the GATK Best Practices. You will learn why each step is essential to the variant-calling process, what key operations are performed on the data at each step, and how to use the GATK tools to get the most accurate and reliable results out of your dataset. If you are an experienced GATK user, you will gain a deeper understanding of how the GATK works under-the-hood and how to improve your results further, especially with respect to the latest innovations.
*Day 1: Introductory and Overview. The first day of the workshop gives a high-level overview of various topics in the morning, and in the afternoon we show how these concepts apply to a case study. The case study is tailored based on the audience, as represented by their answers in our pre-workshop survey.
*Day 2: Germline Short Variant Discovery. Today we dive deep into the tools that make up the GATK Best Practices Pipeline. In the morning we discuss variant discovery, and in the afternoon we look at refinement and filtering. You will have the opportunity both in the morning and in the afternoon to get hands-on with these tools and run them yourself.
*Day 3: Somatic Variant Discovery. Today we will cover Somatic Variant Discovery in more depth. In the morning we primarily focus on calling short variants with Mutect2, and in the afternoon we look at copy number alterations. Both sections have a paired hands-on activity.
*Day 4: Pipelining. Over the first three days, you would have learned a lot about different pipelines and tools that you can use in GATK. Today we will be learning all about how those pipelines are written in a language called WDL. In the afternoon we cover other useful topics to working on the cloud, including Docker and BigQuery.
Please note that this workshop is focused on human data analysis. The majority of the materials presented does apply equally to non-human data, and we will address some questions regarding adaptations that are needed for analysis of non-human data, but we will not go into much detail on those points.
The hands-on GATK tutorials in this workshop will be conducted on [Terra](https://terra.bio/), a new platform developed at Broad in collaboration with Verily Life Sciences for accessing data, running analysis tools and collaborating securely and seamlessly.
The training room is located on the first floor and there is currently no wheelchair or level access available to this level.
Please note that if you are not eligible for a University of Cambridge [Raven](http://www.ucs.cam.ac.uk/docs/faq/raven/n5) account you will need to Book or register Interest by linking [here](http://bioinfotraining.bio.cam.ac.uk/booking-form/?event-id=2858057&amp;course-title=Variant%20Discovery%20with%20GATK4).''2019-07-08 08:30:00 UTC2019-07-11 15:30:00 UTCUniversity of CambridgeCraik-Marshall Building, Cambridge, United KingdomCraik-Marshall BuildingCambridgeUnited KingdomCB2 3ARGenomicsData visualisationData miningBioinformaticsUniversity of Cambridge Bioinformatics Training[]The course is aimed primarily at mid-career scientists – especially those whose formal education likely included statisticsbut who have not perhaps put this into practice since.Graduate studentsPostdocs and Staff members from the University of CambridgeInstitutions and other external Institutions or individualsworkshops_and_courses[][]

Statistical Analysis using R

12 July 2019

Cambridge, United Kingdom

Statistical Analysis using Rhttp://training.csx.cam.ac.uk/bioinformatics/event/2897618https://tess.elixir-europe.org/events/statistical-analysis-using-r-a475c245-6dc2-44ec-ae0a-a6e9022475ffStatistics are an important part of most modern studies and being able to effectively use a statistical package will help you to understand your results.
This course provides an introduction to some statistical techniques through the use of the R language. Topics covered include: Chi2 and Fisher tests, descriptive statistics, t-test, analysis of variance and regression.
Students will run analyses using statistical and graphical skills taught during the session.
The course manual can be found [here](https://www.bioinformatics.babraham.ac.uk/training/R_Statistics/Introduction%20to%20Statistics%20with%20R%20manual.pdf).
This event is supported by the BBSRC Strategic Training Awards for Research Skills (STARS) grant (BB/P022766/1).
The training room is located on the first floor and there is currently no wheelchair or level access available to this level.
Please note that if you are not eligible for a University of Cambridge [Raven](http://www.ucs.cam.ac.uk/docs/faq/raven/n5) account you will need to book by linking [here](http://bioinfotraining.bio.cam.ac.uk/booking-form/?event-id=2426604&amp;&amp;course-title=Statistical%20analysis%20using%20R).''2019-07-12 08:30:00 UTC2019-07-12 16:30:00 UTCUniversity of CambridgeCraik-Marshall Building, Cambridge, United KingdomCraik-Marshall BuildingCambridgeUnited KingdomCB2 3ARBioinformaticsUniversity of Cambridge Bioinformatics Training[]Graduate studentsPostdocs and Staff members from the University of CambridgeInstitutions and other external Institutions or individualsworkshops_and_courses[][]